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[193928_s_at] sodium-dependent neurotransmitter symporter like

Description ZK829.10 /REP_DB=WormBase Gene ID /WP=CE24742 /GEN=snf-8 /TR=O18300 /GB=CAA98079.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=sodium-dependent neurotransmitter symporter like
Cluster 6grp_total > 65      4grp_total > 27      6grp_cgc > 56      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 186
1 2 3 4 range
A 96.2
(-0.6)
A 		117.4
(3)
A 		82
(-3)
A 		114.4
(2.5)
A 		35
B 63.6
(-0.9)
A 		129.8
(3)
A 		60.3
(-1)
A 		26.8
(-3)
A 		103
C 65.7
(-2)
A 		84.8
(-1.3)
A 		35.2
(-3)
A 		212.5
(3)
M 		177
avr 75.2
(-1.4) 		110.7
(2.3) 		59.2
(-3) 		117.9
(3) 		59

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 110
1 2 3 4 5 6 range
A 24
(-2.9)
A 		44
(-1.4)
A 		82.1
(1.5)
A 		23.3
(-3)
A 		53.5
(-0.7)
A 		101.9
(3)
A 		79
B 12.6
(-3)
A 		76.9
(0.5)
A 		122.9
(3)
A 		48.1
(-1.1)
A 		46.7
(-1.1)
A 		73.9
(0.3)
A 		110
C 21
(-2.7)
A 		71.5
(1.5)
A 		33.5
(-1.6)
A 		85.8
(2.6)
A 		16.8
(-3)
A 		90.5
(3)
A 		74
avr 19.2
(-3) 		64.1
(0.9) 		79.5
(2.2) 		52.4
(-0.1) 		39
(-1.3) 		88.8
(3) 		70
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 30
1 2 3 4 range
A 35
(3)
A 		25.5
(-0.1)
A 		21.4
(-1.5)
A 		16.8
(-3)
A 		18
B 20.3
(0.3)
A 		32.1
(3)
A 		14
(-1.1)
A 		5.7
(-3)
A 		26
C 21.8
(-0.6)
A 		24.4
(0.1)
A 		12.3
(-3)
A 		35.8
(3)
M 		24
avr 25.7
(2.2) 		27.3
(3) 		15.9
(-3) 		19.4
(-1.2) 		11

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 26
1 2 3 4 5 6 range
A 4.4
(-3)
A 		15.7
(0.3)
A 		17.9
(1)
A 		5.9
(-2.6)
A 		16.1
(0.4)
A 		24.8
(3)
A 		20
B 4.4
(-3)
A 		25.6
(2)
A 		29.8
(3)
A 		12.7
(-1)
A 		19
(0.4)
A 		27.5
(2.5)
A 		25
C 7.8
(-2.4)
A 		21.8
(0.9)
A 		8.5
(-2.3)
A 		17.3
(-0.1)
A 		5.5
(-3)
A 		30.3
(3)
A 		25
avr 5.5
(-3) 		21
(1.2) 		18.7
(0.6) 		12
(-1.2) 		13.5
(-0.8) 		27.5
(3) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 193928_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8421
Sequence Type Exemplar sequence
Representative Public ID ZK829.10 NCBI
Target Description ZK829.10 /REP_DB=WormBase Gene ID /WP=CE24742 /GEN=snf-8 /TR=O18300 /GB=CAA98079.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=sodium-dependent neurotransmitter symporter like
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_069870(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_069870 NCBI Caenorhabditis elegans Sodium:Neurotransmitter symporter Family family member (snf-8) (snf-8) mRNA, complete cds. 11/11 None
SNAP00000012768 ENSEMBL cdna:SNAP chromosome:CEL140:IV:11965637:11967615:-1 11/11 None
GENEFINDER00000012779 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:11963789:11968673:-1 11/11 None
ZK829.10 ENSEMBL cdna:known chromosome:CEL140:IV:11965573:11968673:-1 gene:ZK829.10 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIV:11965642-11968679(-) 100.0 100.0
Public Domain and Genome References
Gene Title sodium-dependent neurotransmitter symporter like
Gene Symbol snf-8
Ensembl ZK829.10
Entrez Gene 178133 Entrez gene
SwissProt O18300 EMBL-EBI
WormBase CE24742 Wormbase
Functional Annotations
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6836 neurotransmitter transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
5887 integral to plasma membrane inferred from electronic annotation QuickGO AmiGO
16020 membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
5328 neurotransmitter:sodium symporter activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAA98079 Hypothetical protein ZK829.10 [Caenorhabditis elegans] ref|NP_502271.1| Sodium:Neurotransmitter symporter Family family member (snf-8) [Caenorhabditis elegans] 0.0
blast CAA98078 Hypothetical protein ZK829.8 [Caenorhabditis elegans] ref|NP_502270.1| Serpentine Receptor, class J family member (srj-1) [Caenorhabditis elegans] 0.0
blast CAE62156 Hypothetical protein CBG06202 [Caenorhabditis briggsae] 3.0E-65
blast CAE62156 Hypothetical protein CBG06202 [Caenorhabditis briggsae] 3.0E-59
blast CAE62156 Hypothetical protein CBG06202 [Caenorhabditis briggsae] 4.0E-49
blast CAB05153 Hypothetical protein C49C3.1 [Caenorhabditis elegans] ref|NP_503077.1| Sodium:Neurotransmitter symporter Family family member (snf-9) [Caenorhabditis elegans] 5.0E-41
Protein Domains
Database ID Description E-Value
Pfam IPR000175 EMBL-EBI Sodium:neurotransmitter symporter 5.8E-5
Pfam IPR003002 EMBL-EBI 7TM chemoreceptor, subfamily 1 1.5E-4
Pfam IPR000175 EMBL-EBI Sodium:neurotransmitter symporter 5.8E-5
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502271.1 11 20-39,52-74,89-111,188-210,220-242,303-325,363-385,405-424,439-461,493-512,527-549
ZK829.10 11 20-39,52-74,89-111,188-210,220-242,303-325,363-385,405-424,439-461,493-512,527-549
SNAP00000012768 7 15-37,50-72,112-134,154-173,188-210,242-261,276-298
GENEFINDER00000012779 18 20-42,52-74,181-203,213-235,296-318,356-378,398-417,432-454,486-505,520-542,647-665,669-687,699-721,747-769,789-811,853-875,901-923,938-957
Sequence
Target Sequence 
>C. ELEGANS:193928_S_AT
atgggacagccatccaatgaccaatggagtcgagcttacacgtggcccatctggaaatgg
agatggacaactgcaccagctttttcgattatattcgccgtatctgcattcttcagaccc
tttccgagtcctgaaaatgatcttgaatattactatttctacgatttaatccagtttttc
atacttttcttcgtaattgtatctccatttggtttcgcttattattcatacctgaagatg
tggcatcactttgaaaagtttgagaaggaaaaacaattcaattcaagtatcctctggcat
cgccaacttcatctacgttcgtggaatcgaattgaaaaggaaatgagtgaagaacaaagg
aattttgcacatcaacatctacctgaaaaagagtctgaagatttggaagagttctggaag
ttggtgtaccgcccattctttgaaaccccgtctcacgaaactgtgat

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
ATGGGACAGCCATCCAATGACCAAT 115 51 1426 Antisense
CTTACACGTGGCCCATCTGGAAATG 284 221 1460 Antisense
ACTGCACCAGCTTTTTCGATTATAT 175 99 1495 Antisense
ATTCGCCGTATCTGCATTCTTCAGA 292 9 1518 Antisense
TTCAGACCCTTTCCGAGTCCTGAAA 77 683 1537 Antisense
ATCCAGTTTTTCATACTTTTCTTCG 552 39 1594 Antisense
CTTTTCTTCGTAATTGTATCTCCAT 177 223 1609 Antisense
ATCTCCATTTGGTTTCGCTTATTAT 467 33 1626 Antisense
CAATTCAAGTATCCTCTGGCATCGC 243 181 1704 Antisense
TCTGGAAGTTGGTGTACCGCCCATT 145 605 1838 Antisense
AAACCCCGTCTCACGAAACTGTGAT 180 119 1868 Antisense
Sequence Source Affymetrix Proprietary Database